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Find the robust nodes in ALPACA community using CRANE

Usage

alpacaCrane(input, alp, alpha = 0.1, beta = 0, iteration = 30, isParallel = F)

Arguments

input

same input for alpaca: first column TF, second column Genes, third column edge weights from baseline condition, fourth column edge weights from disease condition.

alp

alpca object in list format (output from alpaca package)

alpha

alpha paramter perturbs each edge weights

beta

beta parameter perturbs the strength of each node. Set this to 0 if you want nodes to have node strength identical to the orignal network.

iteration

Number of CRANE distributions to create. Higher value leads to better ranking but longer runtime.

isParallel

TRUE = use Multithread / FALSE = do not use Multithread

Value

list of data frames

Examples

if (FALSE) {

input=cbind(nonAng,ang[,3])
alp=alpaca(input,NULL,verbose = F)
alpListObject=alpacaCrane(input, alp, isParallel = T)

}